Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002769.1 Hibiscus syriacus cultivar Beakdansim tig00005708_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 132193
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Found at i:177 original size:102 final size:104
Alignment explanation
Indices: 1--778 Score: 1055
Period size: 102 Copynumber: 7.7 Consensus size: 104
1 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAA-TTCAGAGCCAA
1 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTCCCAATTTCAGAGCCAA
*
65 TTTTAACTTCACAGCGAAGGATATTGGACTCCAGAC-A-C
65 TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACC
103 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT-AGAGCCAA
1 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTCCCAATTTCAGAGCCAA
*
167 TTTCAACTTCACAACGAAGG-T-TTGGACT-CAGACAACGC
65 TTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAAC-C
205 AAGTTCAACTT--C-ACGAAGGGACCGCTGGTTGTCAACAAACAATTCCCAATTTCAGAGCCAAT
1 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTCCCAATTTCAGAGCCAAT
267 TTCAACTTCACAGCGAAGGATA-TGGACT-CAGACAACGC
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAAC-C
* *
305 AAGTTCAACTTCACGATG-A---A--GCTGGTTGTCAACAAA-ACTTCCCAATTTCAGAGCCAAT
1 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTCCCAATTTCAGAGCCAAT
*
363 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAAC-C
* *
403 AAGTTCAACTTCACGACGAA-GGA-CGCTGGTTGTC-A-ATA-AATTTCCAATTTCAGAGCCAA-
1 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTCCCAATTTCAGAGCCAAT
* *
462 TTCAACTTCACAGCGTAGGATA-TGGACTCAAGACAACGC
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAAC-C
*
501 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTCCCAATTTCAGAGCCAAT
1 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTCCCAATTTCAGAGCCAAT
* * * *
566 TTCAACTTCTCAGTGAAGGATCTTGGAC-CCAAGATAA-C
66 TTCAACTTCACAGCGAAGGATATTGGACTCC-AGACAACC
* *
604 AAGCTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AACAATTCCCAATTTCGGAGCCAAT
1 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTCCCAATTTCAGAGCCAAT
* *
668 TTCAACTTCACAACAAAGGATATTGGACT-CAGACAACAC
66 TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAAC-C
* * *
707 AAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAAACAATTTCCC-ATTTC-GAGCCAA
1 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTCCCAATTTCAGAGCCAA
770 -TTCAACTTC
65 TTTCAACTTC
779 CAGAGCCAAT
Statistics
Matches: 613, Mismatches: 34, Indels: 58
0.87 0.05 0.08
Matches are distributed among these distances:
96 42 0.07
97 22 0.04
98 73 0.12
99 87 0.14
100 69 0.11
101 9 0.01
102 162 0.26
103 105 0.17
104 29 0.05
105 15 0.02
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (104 bp):
AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTCCCAATTTCAGAGCCAAT
TTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACC
Found at i:424 original size:201 final size:204
Alignment explanation
Indices: 1--778 Score: 1009
Period size: 201 Copynumber: 3.9 Consensus size: 204
1 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAA-TTCAGAGCCAA
1 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-TTCCCAATTTCAGAGCCAA
*
65 TTTTAACTTCACAGCGAAGGATATTGGACTCCAGAC-A--CAAGTTCAACTTCACGACGAAGGGA
65 TTTCAACTTCACAGCGAAGGATATTGGACT-CAGACAACGCAAGTTCAACTTCACGACGAA--GA
127 CCGCTGGTTGTCAACAAACAACTTCCCAATTT-AGAGCCAATTTCAACTTCACAACGAAGG-TTT
127 -CGCTGGTTGTCAAC-AA-AACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATTT
190 GGACT-CAGACAACGC
189 GGACTCCAGACAACGC
205 AAGTTCAACTT--C-ACGAAGGGACCGCTGGTTGTCAACAAACAATTCCCAATTTCAGAGCCAAT
1 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTCCCAATTTCAGAGCCAAT
*
267 TTCAACTTCACAGCGAAGGATA-TGGACTCAGACAACGCAAGTTCAACTTCACGATG-A-A-GCT
66 TTCAACTTCACAGCGAAGGATATTGGACTCAGACAACGCAAGTTCAACTTCACGACGAAGACGCT
328 GGTTGTCAACAAAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
131 GGTTGTCAACAAAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT-TTGGACTC
393 CAGACAACGC
195 CAGACAACGC
* *
403 AAGTTCAACTTCACGACGAA-GGA-CGCTGGTTGTC-A-ATA-AATTTCCAATTTCAGAGCCAA-
1 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTCCCAATTTCAGAGCCAAT
*
462 TTCAACTTCACAGCGTAGGATA-TGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
66 TTCAACTTCACAGCGAAGGATATTGGACTC-AGACAACGCAAGTTCAACTTCACGACGAA--GA-
* * * **
526 CGCTGGTTGTCAATAAACAATTCCCAATTTCAGAGCCAATTTCAACTTCTCAGTGAAGGATCTTG
127 CGCTGGTTGTCAACAAA-ACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT-TTG
*
591 GAC-CCAAGATAA--C
190 GACTCC-AGACAACGC
* *
604 AAGCTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AACAATTCCCAATTTCGGAGCCAAT
1 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTCCCAATTTCAGAGCCAAT
* * * *
668 TTCAACTTCACAACAAAGGATATTGGACTCAGACAACACAAGTTCAACTTCACAACGAAGGGACG
66 TTCAACTTCACAGCGAAGGATATTGGACTCAGACAACGCAAGTTCAACTTCACGACGAA--GAC-
* *
733 GTTGGTTGTCAACAAACAATTTCCC-ATTTC-GAGCCAA-TTCAACTTC
128 GCTGGTTGTCAAC-AA-AACTTCCCAATTTCAGAGCCAATTTCAACTTC
779 CAGAGCCAAT
Statistics
Matches: 519, Mismatches: 25, Indels: 60
0.86 0.04 0.10
Matches are distributed among these distances:
194 13 0.03
195 58 0.11
196 60 0.12
197 10 0.02
198 23 0.04
199 16 0.03
200 19 0.04
201 89 0.17
202 39 0.08
203 61 0.12
204 22 0.04
205 27 0.05
206 66 0.13
207 15 0.03
208 1 0.00
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (204 bp):
AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTCCCAATTTCAGAGCCAAT
TTCAACTTCACAGCGAAGGATATTGGACTCAGACAACGCAAGTTCAACTTCACGACGAAGACGCT
GGTTGTCAACAAAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATTTGGACTCC
AGACAACGC
Found at i:562 original size:299 final size:301
Alignment explanation
Indices: 5--778 Score: 1069
Period size: 299 Copynumber: 2.6 Consensus size: 301
1 AAGT
*
5 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAA-TTCAGAGCCAATTTT
1 TCAACTTCACGACGAA--GA-CGCTGGTTGTCAAC-AACAACTTCCCAATTTCAGAGCCAATTTC
*
69 AACTTCACAGCGAAGGATATTGGACTCCAGAC-A-CAAGTTCAACTTCACGACGAAGGGACCGCT
62 AACTTCACAACGAAGGATATTGGACTCCAGACAACCAAGTTCAACTTCACGACGAAGGGA-CGCT
* *
132 GGTTGTCAACAAACAACTTCCCAATTT-AGAGCCAATTTCAACTTCACAACGAAGGTTTGGACTC
126 GGTTGTCAACAAACAA-TTTCCAATTTCAGAGCCAA-TTCAACTTCACAACGAAGGTATGGACTC
196 AGACAACGCAAGTTCAACTTCACGAAGGGACCGCTGGTTGTCAACAAACAATTCCCAATTTCAGA
189 AGACAACGCAAGTTCAACTTCACGAAGGGACCGCTGGTTGTCAACAAACAATTCCCAATTTCAGA
* *
261 GCCAATTTCAACTTCACAGCGAAGGAT-ATGGACTC-AGACAACGCAAGT
254 GCCAATTTCAACTTCACAGCGAAGGATCATGGACCCAAGACAA--CAAGC
*
309 TCAACTTCACGATG-A-A-GCTGGTTGTCAACAA-AACTTCCCAATTTCAGAGCCAATTTCAACT
1 TCAACTTCACGACGAAGACGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAATTTCAACT
370 TCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA-GGACGCTGGTT
66 TCACAACGAAGGATATTGGACTCCAGACAAC-CAAGTTCAACTTCACGACGAAGGGACGCTGGTT
* * *
434 GTC-A-ATA-AATTTCCAATTTCAGAGCCAATTCAACTTCACAGCGTAGGATATGGACTCAAGAC
130 GTCAACAAACAATTTCCAATTTCAGAGCCAATTCAACTTCACAACGAAGG-TATGGACTC-AGAC
*
496 AACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTCCCAATTTCAGAG
193 AACGCAAGTTCAACTT--C-ACGAAGGGACCGCTGGTTGTCAACAAACAATTCCCAATTTCAGAG
* * * *
561 CCAATTTCAACTTCTCAGTGAAGGATCTTGGACCCAAGATAACAAGC
255 CCAATTTCAACTTCACAGCGAAGGATCATGGACCCAAGACAACAAGC
*
608 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAA-TTCCCAATTTCGGAGCCAATTTCA
1 TCAACTTCACGACGAA--GA-CGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAATTTCA
* * *
672 ACTTCACAACAAAGGATATTGGACT-CAGACAACACAAGTTCAACTTCACAACGAAGGGACGGTT
63 ACTTCACAACGAAGGATATTGGACTCCAGACAAC-CAAGTTCAACTTCACGACGAAGGGAC-GCT
*
736 GGTTGTCAACAAACAATTTCCCATTTC-GAGCCAATTCAACTTC
126 GGTTGTCAACAAACAATTTCCAATTTCAGAGCCAATTCAACTTC
779 CAGAGCCAAT
Statistics
Matches: 423, Mismatches: 23, Indels: 44
0.86 0.05 0.09
Matches are distributed among these distances:
294 26 0.06
295 18 0.04
296 32 0.08
297 48 0.11
298 26 0.06
299 88 0.21
300 29 0.07
301 5 0.01
303 2 0.00
304 41 0.10
305 66 0.16
306 11 0.03
307 1 0.00
308 18 0.04
309 12 0.03
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (301 bp):
TCAACTTCACGACGAAGACGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCCAATTTCAACT
TCACAACGAAGGATATTGGACTCCAGACAACCAAGTTCAACTTCACGACGAAGGGACGCTGGTTG
TCAACAAACAATTTCCAATTTCAGAGCCAATTCAACTTCACAACGAAGGTATGGACTCAGACAAC
GCAAGTTCAACTTCACGAAGGGACCGCTGGTTGTCAACAAACAATTCCCAATTTCAGAGCCAATT
TCAACTTCACAGCGAAGGATCATGGACCCAAGACAACAAGC
Found at i:1599 original size:35 final size:36
Alignment explanation
Indices: 1511--1612 Score: 118
Period size: 35 Copynumber: 2.8 Consensus size: 36
1501 ACTTTTCGTC
*
1511 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTTAAACTCCT-AAAATAGGATAGAATT
* * *
1548 TTGCTAGGATTT-AACTCCTAAAATAGGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAATAGGATAGAATT
**
1583 CTACTA-TTTTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTTAAACTCCTAAA-ATAGGAT
1613 CCACAAGCAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
34 3 0.05
35 29 0.53
36 14 0.25
37 9 0.16
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (36 bp):
CTACTAGGATTTAAACTCCTAAAATAGGATAGAATT
Found at i:2177 original size:12 final size:12
Alignment explanation
Indices: 2162--2254 Score: 63
Period size: 12 Copynumber: 7.8 Consensus size: 12
2152 TTATTATTAC
2162 TATTATATTTAT
1 TATTATATTTAT
* *
2174 TATTATTTTTAC
1 TATTATATTTAT
2186 TATTATATTTTCAT
1 TATTATA-TTT-AT
2200 T-TTAT-TTTACT
1 TATTATATTTA-T
*
2211 TATT-TATATA-
1 TATTATATTTAT
2221 TATGTATATTT-T
1 TAT-TATATTTAT
*
2233 TA-TATTTATTAT
1 TATTATAT-TTAT
2245 TATTATATTT
1 TATTATATTT
2255 TTTTACTTTC
Statistics
Matches: 62, Mismatches: 8, Indels: 22
0.67 0.09 0.24
Matches are distributed among these distances:
10 8 0.13
11 9 0.15
12 32 0.52
13 11 0.18
14 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (12 bp):
TATTATATTTAT
Found at i:2179 original size:24 final size:24
Alignment explanation
Indices: 2152--2250 Score: 88
Period size: 24 Copynumber: 4.3 Consensus size: 24
2142 CTTTGCATTT
2152 TTATTATTACTATTATATTTATTA
1 TTATTATTACTATTATATTTATTA
*
2176 TTATTTTTACTATTATATTTTCATT-
1 TTATTATTACTATTATA-TTT-ATTA
*
2201 TTATT-TTACTTATT-TATATA-TA
1 TTATTATTAC-TATTATATTTATTA
2223 TGTA-TATT--T-TTATATTTATTA
1 T-TATTATTACTATTATATTTATTA
2244 TTATTAT
1 TTATTAT
2251 ATTTTTTTAC
Statistics
Matches: 63, Mismatches: 3, Indels: 21
0.72 0.03 0.24
Matches are distributed among these distances:
19 2 0.03
20 8 0.13
21 7 0.11
22 3 0.05
23 6 0.10
24 22 0.35
25 12 0.19
26 3 0.05
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (24 bp):
TTATTATTACTATTATATTTATTA
Found at i:2257 original size:24 final size:24
Alignment explanation
Indices: 2211--2256 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
2201 TTATTTTACT
2211 TATTTATATATATGTATATTTTTA
1 TATTTATATATATGTATATTTTTA
2235 TATTTAT-TATTAT-TATATTTTT
1 TATTTATATA-TATGTATATTTTT
2257 TTACTTTCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TATTTATATATATGTATATTTTTA
Found at i:2297 original size:12 final size:11
Alignment explanation
Indices: 2275--2314 Score: 55
Period size: 12 Copynumber: 3.6 Consensus size: 11
2265 TCTTTCTTTT
2275 TATTATTCTTG
1 TATTATTCTTG
2286 TATTATTACTTG
1 TATTATT-CTTG
*
2298 TATTATT-TTA
1 TATTATTCTTG
2308 TATTATT
1 TATTATT
2315 TATTTATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 9 0.33
11 7 0.26
12 11 0.41
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.65
Consensus pattern (11 bp):
TATTATTCTTG
Found at i:2318 original size:7 final size:7
Alignment explanation
Indices: 2301--2357 Score: 66
Period size: 7 Copynumber: 8.4 Consensus size: 7
2291 TTACTTGTAT
*
2301 TATTTTA
1 TATTATA
*
2308 TATTATT
1 TATTATA
2315 TATT-TA
1 TATTATA
2321 TATTATA
1 TATTATA
2328 TATTATA
1 TATTATA
2335 TA-TATA
1 TATTATA
2341 TA-TATA
1 TATTATA
2347 TATATATA
1 TAT-TATA
2355 TAT
1 TAT
2358 GCGTATTTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
6 17 0.39
7 20 0.45
8 7 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TATTATA
Found at i:2320 original size:13 final size:13
Alignment explanation
Indices: 2304--2357 Score: 65
Period size: 13 Copynumber: 4.1 Consensus size: 13
2294 CTTGTATTAT
*
2304 TTTATATTATTTA
1 TTTATATTATATA
2317 TTTATATTATATA
1 TTTATATTATATA
2330 -TTATATATATATA
1 TTTATAT-TATATA
*
2343 TATATATATATATA
1 TTTATAT-TATATA
2357 T
1 T
2358 GCGTATTTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
12 6 0.16
13 18 0.49
14 13 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TTTATATTATATA
Found at i:2329 original size:20 final size:20
Alignment explanation
Indices: 2301--2357 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
2291 TTACTTGTAT
* * *
2301 TATTTTATATTATTTATTTA
1 TATTATATATTATATATATA
2321 TATTATATATTATATATATA
1 TATTATATATTATATATATA
2341 TA-TATATA-TATATATAT
1 TATTATATATTATATATAT
2358 GCGTATTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
18 9 0.26
19 6 0.18
20 19 0.56
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTATATATTATATATATA
Found at i:2336 original size:2 final size:2
Alignment explanation
Indices: 2306--2357 Score: 65
Period size: 2 Copynumber: 27.5 Consensus size: 2
2296 TGTATTATTT
* *
2306 TA TA T- TA TT TA TT TA TA T- TA TA TA T- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2345 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
2358 GCGTATTTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
1 3 0.07
2 40 0.93
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (2 bp):
TA
Found at i:2554 original size:2 final size:2
Alignment explanation
Indices: 2549--2595 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
2539 TTTTACTATC
2549 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2590 AT AT AT
1 AT AT AT
2596 TCTACACAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2846 original size:20 final size:21
Alignment explanation
Indices: 2821--2859 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2811 CGTCATTTAA
2821 TTTA-TTAATTTATATATACT
1 TTTATTTAATTTATATATACT
*
2841 TTTATTTATTTTATATATA
1 TTTATTTAATTTATATATA
2860 TTATTCGTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTATTTAATTTATATATACT
Found at i:2934 original size:21 final size:21
Alignment explanation
Indices: 2829--2941 Score: 61
Period size: 23 Copynumber: 5.1 Consensus size: 21
2819 AATTTATTAA
* *
2829 TTTATATATACTTTTATT-TAT
1 TTTATATATA-TTTTTTTCTTT
* *
2850 TTTATATATATTATTCGTACTTT
1 TTTATATATATT-TT-TTTCTTT
* *
2873 GTTAT-TATTATTTTGTTTATTT
1 TTTATATA-TATTTT-TTTCTTT
*
2895 GTTT-TATTTATTTCCTTTTCTTT
1 -TTTATATATATTT--TTTTCTTT
*
2918 TTTATATATATTTTTTTTTTT
1 TTTATATATATTTTTTTCTTT
2939 TTT
1 TTT
2942 TTTACTTACT
Statistics
Matches: 70, Mismatches: 13, Indels: 18
0.69 0.13 0.18
Matches are distributed among these distances:
20 2 0.03
21 22 0.31
22 18 0.26
23 27 0.39
24 1 0.01
ACGTcount: A:0.19, C:0.05, G:0.04, T:0.72
Consensus pattern (21 bp):
TTTATATATATTTTTTTCTTT
Found at i:6592 original size:165 final size:165
Alignment explanation
Indices: 6087--7010 Score: 1090
Period size: 165 Copynumber: 5.6 Consensus size: 165
6077 TAAAGAAACT
* * * * * * *
6087 ATTTGCAACATAGCTTAAGTCAAGAAGGGCTATTTGTC-ACCAAAAGACCTTCGAGTTTGACTAC
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTAC
** * *
6151 GCTCAGCTCTGAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
65 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACC
* *
6216 CTCGTGTTCGATTACACTCAGCTTCAAGGGCACATT
130 CTCGAGTTCGATTACACTCAGCTTCAAGGGCACATC
* **
6252 ATTTGCAGCATAACTCAAGGT-TAGAAGGGTTATCTG-TGACCAAA-ACCTTCGAGTTCGACTAC
1 ATTTGCAGCATAACTTAA-GTCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* * * *
6314 GCTCAGCTCAAAGGCACAACATTTGCAGCATAGCTTAAATCAAGAAGGGTTATCTGCCATCCAAA
65 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG----CC-AA
* * * *
6379 AGACCCCCGAGTTCAATTACACTCAGCTTCGAGGGAACATC
125 AGACCCTCGAGTTCGATTACACTCAGCTTCAAGGGCACATC
* * *
6420 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACTAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* * *
6485 CTTAGCTCCAAGGCACATCATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACCC
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCC
* *
6550 TCGAGTTCGATTACACTCAGCTTCGAGGGGACATC
131 TCGAGTTCGATTACACTCAGCTTCAAGGGCACATC
* *
6585 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
*
6650 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCC
*
6715 TTGAGTTCGATTACACTCAGCTTCAAGGGCACATC
131 TCGAGTTCGATTACACTCAGCTTCAAGGGCACATC
* * * *
6750 ATTTACAGCATAA-TTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACATTCGAGTTC-ACTAC
1 ATTTGCAGCATAACTT-AAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* * *
6812 GCTCAGCTCC-A---ATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAA
65 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCT----GCCAAA
* * * *
6873 GACCTTCGAGTTCGATTACGCTCAGCTCCAAGGTG--CGTC
126 GACCCTCGAGTTCGATTACACTCAGCTTCAAGG-GCACATC
* * * * * *
6912 ATTTGCGGTATAGCTCAAGGCTAGAAGGGCTATCTGCC-A--AAA-ACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
* * * * *
6973 CTCAGCTCTAGGGCACATCATTTACAACATAGCCTAAG
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAG
7011 GAAAGAAGGG
Statistics
Matches: 662, Mismatches: 75, Indels: 45
0.85 0.10 0.06
Matches are distributed among these distances:
159 48 0.07
160 17 0.03
162 34 0.05
163 116 0.18
164 42 0.06
165 258 0.39
166 4 0.01
167 4 0.01
168 68 0.10
169 5 0.01
170 66 0.10
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (165 bp):
ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCC
TCGAGTTCGATTACACTCAGCTTCAAGGGCACATC
Found at i:7671 original size:37 final size:36
Alignment explanation
Indices: 7616--7862 Score: 135
Period size: 37 Copynumber: 6.9 Consensus size: 36
7606 AGGTATAATA
* *
7616 ATAG-TTTTCAAAATATTTTGAAAATGTATATATTAT
1 ATAGTTTTTTAAAACATTTTGAAAAT-TATATATTAT
* *
7652 ATAGTTTTTTAAAACATTTTTGAAAATTAAATAATAT
1 ATAGTTTTTTAAAACA-TTTTGAAAATTATATATTAT
*
7689 ATAGATTTTTAAAACATTTTAGAAAA-TATATAATATAT
1 ATAGTTTTTTAAAACATTTT-GAAAATTATAT-AT-TAT
* *
7727 ATAG--TTTGAAAATAATTTTGAAAA-TATATA--AT
1 ATAGTTTTTTAAAA-CATTTTGAAAATTATATATTAT
* * *
7759 ATAATTTTTGAAAAAAAACATTTTTGAAAA-CATATA--AT
1 ATAGTTTTT----TAAAACA-TTTTGAAAATTATATATTAT
* **
7797 ATAG--TTTTAAAACATTTTTGAAAACTATATAACAT
1 ATAGTTTTTTAAAACA-TTTTGAAAATTATATATTAT
** *
7832 ATAG--TTCAAAAACATTTTTTAAAATTATATA
1 ATAGTTTTTTAAAACA-TTTTGAAAATTATATA
7863 ATTGTTTGGA
Statistics
Matches: 175, Mismatches: 20, Indels: 33
0.77 0.09 0.14
Matches are distributed among these distances:
32 21 0.12
33 5 0.03
34 3 0.02
35 30 0.17
36 32 0.18
37 44 0.25
38 40 0.23
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (36 bp):
ATAGTTTTTTAAAACATTTTGAAAATTATATATTAT
Found at i:7750 original size:36 final size:36
Alignment explanation
Indices: 7572--7761 Score: 129
Period size: 36 Copynumber: 5.1 Consensus size: 36
7562 ATATATATCT
* * * *
7572 ATATTTATAGTTTGCAAATAGTTTTTGAAAATACAGGT-
1 ATATATATAGTTTGAAAATA-ATTTTGAAAATATA--TA
* *
7610 ATA-ATAATAGTTTTCAAAAT-ATTTTGAAAATGTAT-
1 ATATAT-ATAG-TTTGAAAATAATTTTGAAAATATATA
* * * *
7645 ATATTATATAGTTTTTTAAAACATTTTTGAAAATTAAATA
1 ATA-TATATAG--TTTGAAAATAATTTTGAAAA-TATATA
* * * *
7685 ATATATAGATTTTTAAAA-CATTTTAGAAAATATATA
1 ATATATATAGTTTGAAAATAATTTT-GAAAATATATA
7721 ATATATATAGTTTGAAAATAATTTTGAAAATATATA
1 ATATATATAGTTTGAAAATAATTTTGAAAATATATA
7757 ATATA
1 ATATA
7762 ATTTTTGAAA
Statistics
Matches: 122, Mismatches: 20, Indels: 22
0.74 0.12 0.13
Matches are distributed among these distances:
35 4 0.03
36 44 0.36
37 40 0.33
38 16 0.13
39 15 0.12
40 3 0.02
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (36 bp):
ATATATATAGTTTGAAAATAATTTTGAAAATATATA
Found at i:7844 original size:35 final size:34
Alignment explanation
Indices: 7772--7863 Score: 125
Period size: 35 Copynumber: 2.7 Consensus size: 34
7762 ATTTTTGAAA
*
7772 AAAAACATTTTTGAAAAC-ATAT-AATATAGTTT
1 AAAAACATTTTTGAAAACTATATAAATATAGTTC
*
7804 TAAAACATTTTTGAAAACTATATAACATATAGTTC
1 AAAAACATTTTTGAAAACTATATAA-ATATAGTTC
* *
7839 AAAAACATTTTTTAAAATTATATAA
1 AAAAACATTTTTGAAAACTATATAA
7864 TTGTTTGGAA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
32 17 0.33
33 4 0.08
34 1 0.02
35 30 0.58
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (34 bp):
AAAAACATTTTTGAAAACTATATAAATATAGTTC
Found at i:9041 original size:2 final size:2
Alignment explanation
Indices: 9034--9059 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9024 ATTCTTTATG
9034 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
9060 CTTTTTTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9123 original size:17 final size:17
Alignment explanation
Indices: 9103--9137 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9093 GTTTTACAAT
9103 ATTTAATGTTTTATTTC
1 ATTTAATGTTTTATTTC
* *
9120 ATTTTATTTTTTATTTC
1 ATTTAATGTTTTATTTC
9137 A
1 A
9138 ATTTCACTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.06, G:0.03, T:0.69
Consensus pattern (17 bp):
ATTTAATGTTTTATTTC
Found at i:23107 original size:2 final size:2
Alignment explanation
Indices: 23102--23141 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
23092 AAAAACTTGA
23102 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23142 AAAACATTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:23187 original size:8 final size:8
Alignment explanation
Indices: 23104--23187 Score: 51
Period size: 8 Copynumber: 9.9 Consensus size: 8
23094 AAACTTGAAT
*
23104 ATATATAT
1 ATATATAA
*
23112 ATATATAT
1 ATATATAA
*
23120 ATATATAT
1 ATATATAA
23128 ATATATAA
1 ATATATAA
*
23136 TATATAAAA
1 -ATATATAA
* *
23145 ACATTTAA
1 ATATATAA
*
23153 ATTTGAATAA
1 ATAT--ATAA
*
23163 TTATATATA
1 ATATATA-A
23172 ATATTATAA
1 ATA-TATAA
23181 ATATATA
1 ATATATA
23188 TGATTAAATT
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
8 37 0.62
9 14 0.23
10 9 0.15
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (8 bp):
ATATATAA
Found at i:24165 original size:10 final size:10
Alignment explanation
Indices: 24150--24201 Score: 70
Period size: 10 Copynumber: 5.3 Consensus size: 10
24140 GCCCGGATAT
*
24150 TTTATTAATA
1 TTTATTATTA
24160 TTTATTATTA
1 TTTATTATTA
24170 -TTATTATTA
1 TTTATTATTA
*
24179 ATTATTATTA
1 TTTATTATTA
*
24189 TTTTTTATTA
1 TTTATTATTA
24199 TTT
1 TTT
24202 TATTGCAAGC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
9 9 0.24
10 29 0.76
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTATTATTA
Found at i:24169 original size:3 final size:3
Alignment explanation
Indices: 24147--24205 Score: 63
Period size: 3 Copynumber: 20.3 Consensus size: 3
24137 TTCGCCCGGA
*
24147 TAT T-T TAT TAA TATT TAT TAT TAT TAT TAT TAAT TAT TAT TAT T-T
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
24192 T-T TAT TAT T-T TAT T
1 TAT TAT TAT TAT TAT T
24206 GCAAGCCCAT
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
2 8 0.16
3 36 0.73
4 5 0.10
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:24172 original size:16 final size:16
Alignment explanation
Indices: 24147--24205 Score: 77
Period size: 16 Copynumber: 3.8 Consensus size: 16
24137 TTCGCCCGGA
*
24147 TATT-TTATTAATATT
1 TATTATTATTATTATT
24162 TATTATTATTATTATT
1 TATTATTATTATTATT
* *
24178 AATTATTATTATTTTT
1 TATTATTATTATTATT
24194 TATTATT-TTATT
1 TATTATTATTATT
24206 GCAAGCCCAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.23
16 30 0.77
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TATTATTATTATTATT
Found at i:24199 original size:13 final size:13
Alignment explanation
Indices: 24149--24200 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
24139 CGCCCGGATA
*
24149 TTTTATTAATATT
1 TTTTATTATTATT
*
24162 TATTATTATTATT
1 TTTTATTATTATT
24175 ATTAATTATTATTATT
1 -TT--TTATTATTATT
24191 TTTTATTATT
1 TTTTATTATT
24201 TTATTGCAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 19 0.58
14 1 0.03
15 2 0.06
16 11 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTATTATTATT
Found at i:27803 original size:27 final size:27
Alignment explanation
Indices: 27769--27840 Score: 128
Period size: 27 Copynumber: 2.7 Consensus size: 27
27759 ATGGAGGTAC
27769 AAAA-CATGTCTGGGTAGAACTTTTAT
1 AAAAGCATGTCTGGGTAGAACTTTTAT
27795 AAAAGCATGTCTGGGTAGAACTTTTAT
1 AAAAGCATGTCTGGGTAGAACTTTTAT
*
27822 AAAAGCATGTCAGGGTAGA
1 AAAAGCATGTCTGGGTAGA
27841 TACCATGTTG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
26 4 0.09
27 40 0.91
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (27 bp):
AAAAGCATGTCTGGGTAGAACTTTTAT
Found at i:34874 original size:41 final size:42
Alignment explanation
Indices: 34773--34893 Score: 154
Period size: 42 Copynumber: 2.9 Consensus size: 42
34763 CCAAAATTGG
* * *
34773 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGAT
1 TAAGTCCTTCGGGCCATCTGTAAGTCTTTCGAGCAAGATGAT
* * *
34815 TAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGA-
1 TAAGTCCTTCGGGCCATCTGTAAGTCTTTCGAGCAAGATGAT
* * *
34856 TAAGTCCTTCGGGCCATCTATAAGACCTTCGAGCAAGA
1 TAAGTCCTTCGGGCCATCTGTAAGTCTTTCGAGCAAGA
34894 CGCTTTCATG
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
41 32 0.48
42 35 0.52
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (42 bp):
TAAGTCCTTCGGGCCATCTGTAAGTCTTTCGAGCAAGATGAT
Found at i:35167 original size:260 final size:259
Alignment explanation
Indices: 34693--35355 Score: 1060
Period size: 260 Copynumber: 2.6 Consensus size: 259
34683 TAAAATTGAG
*
34693 ATTTTCAGAAAAT-AAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACGTAGTAAA
1 ATTTTCAGAAAATGAAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAA
*
34757 CTATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCC
66 CTATTTCCAAAATTGGTAAGTCCTTCAGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCC
* * *
34822 TTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCTATAAGACCTTCG
131 TTCGAGTCATCTGTCAATCTTTCGAGCAAGATGATAAGTCCTCCGGGCCATCTATAAGACCTTCG
** *
34887 AGCAAGACGCTTTCATGTGATAATTTGAAATTTGAGAAATCAATTTTCAAAGTTTCTCATTTAGT
196 AGCAAGACGCTTTCATGTGATAATTTGAAAAATGAGAAAGCAATTTTCAAAGTTTCTCA-TTAGT
* *
34952 ATTTTCAAAAAATGAAAATTTTTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCTAGTAAA
1 ATTTTCAGAAAATGAAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAA
* * *
35017 CTATTACCAAAATTGGTAAGTCCTTCACGCCATCAGTAAGTCTTTCAAGCATCATGATTAAATCC
66 CTATTTCCAAAATTGGTAAGTCCTTCAGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCC
*
35082 TTCGAGTTATCTGTCAATCTTTCGAGCAAGATGATAAGTCCTCCGGGCCATCTATAAGACCTTCG
131 TTCGAGTCATCTGTCAATCTTTCGAGCAAGATGATAAGTCCTCCGGGCCATCTATAAGACCTTCG
* * *
35147 GGCAAGATGCTTTCATGTGATAATTTGAAAAATGAGAAGGCAATTTTCAAAGTTTCTCATTAGT
196 AGCAAGACGCTTTCATGTGATAATTTGAAAAATGAGAAAGCAATTTTCAAAGTTTCTCATTAGT
* * *
35211 ATTTTCAGAAAATG-AAATTTTTGAAAAGCAAGAAAGCAATTTCCAAAGTTTCTTAACTAGTAAA
1 ATTTTCAGAAAATGAAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAA
* * * *
35275 CTATTTCCAAAATTGGTAAGTCTTTCAGGCCATCAGTAAGTATTTCGAGAATGATGATTAAATCC
66 CTATTTCCAAAATTGGTAAGTCCTTCAGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCC
* * *
35340 TTTGGGTCATTTGTCA
131 TTCGAGTCATCTGTCA
35356 GACTCATTTG
Statistics
Matches: 370, Mismatches: 33, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
258 116 0.31
259 30 0.08
260 224 0.61
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (259 bp):
ATTTTCAGAAAATGAAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAA
CTATTTCCAAAATTGGTAAGTCCTTCAGGCCATCAGTAAGTCTTTCAAGCATGATGATTAAATCC
TTCGAGTCATCTGTCAATCTTTCGAGCAAGATGATAAGTCCTCCGGGCCATCTATAAGACCTTCG
AGCAAGACGCTTTCATGTGATAATTTGAAAAATGAGAAAGCAATTTTCAAAGTTTCTCATTAGT
Found at i:35442 original size:3 final size:3
Alignment explanation
Indices: 35434--35537 Score: 172
Period size: 3 Copynumber: 34.3 Consensus size: 3
35424 TTGTTACTAT
*
35434 TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
35482 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
*
35528 TTT TTA TTA T
1 TTA TTA TTA T
35538 AGGCCCATTA
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
3 91 0.97
4 3 0.03
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:37314 original size:20 final size:20
Alignment explanation
Indices: 37289--37340 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
37279 ACGCGATATC
* *
37289 AAAATCGCAACGTTGAAAAG
1 AAAATCGCAACGGTCAAAAG
37309 AAAATCGCAACGGTCAAAAG
1 AAAATCGCAACGGTCAAAAG
37329 AAAATCGCAACG
1 AAAATCGCAACG
37341 CGATCTTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.50, C:0.19, G:0.19, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACGGTCAAAAG
Found at i:37401 original size:40 final size:40
Alignment explanation
Indices: 37331--37434 Score: 172
Period size: 40 Copynumber: 2.5 Consensus size: 40
37321 GTCAAAAGAA
* *
37331 AATCGCAACGCGATCTTCCAAGAATCGCAATGCGATCCAAAG
1 AATCGCAATGCGA--TTCCAAGAATCGCAATGCGAGCCAAAG
37373 AATCGCAATGCGATTCCAAGAATCGCAATGCGAGCCAAAG
1 AATCGCAATGCGATTCCAAGAATCGCAATGCGAGCCAAAG
37413 AATCGCAATGCGATTCCAAGAA
1 AATCGCAATGCGATTCCAAGAA
37435 GCAAAACGGC
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
40 48 0.80
42 12 0.20
ACGTcount: A:0.38, C:0.26, G:0.20, T:0.16
Consensus pattern (40 bp):
AATCGCAATGCGATTCCAAGAATCGCAATGCGAGCCAAAG
Found at i:37433 original size:20 final size:20
Alignment explanation
Indices: 37331--37434 Score: 140
Period size: 20 Copynumber: 5.1 Consensus size: 20
37321 GTCAAAAGAA
*
37331 AATCGCAACGCGATCTTCCAAG
1 AATCGCAATGCGA--TTCCAAG
37353 AATCGCAATGCGA-TCCAAAG
1 AATCGCAATGCGATTCC-AAG
37373 AATCGCAATGCGATTCCAAG
1 AATCGCAATGCGATTCCAAG
*
37393 AATCGCAATGCGA-GCCAAAG
1 AATCGCAATGCGATTCC-AAG
37413 AATCGCAATGCGATTCCAAG
1 AATCGCAATGCGATTCCAAG
37433 AA
1 AA
37435 GCAAAACGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 10
0.85 0.03 0.11
Matches are distributed among these distances:
19 5 0.07
20 53 0.71
21 5 0.07
22 12 0.16
ACGTcount: A:0.38, C:0.26, G:0.20, T:0.16
Consensus pattern (20 bp):
AATCGCAATGCGATTCCAAG
Found at i:37560 original size:6 final size:6
Alignment explanation
Indices: 37549--37581 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
37539 GACACGTATT
37549 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
37582 CGAGACGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:38341 original size:6 final size:6
Alignment explanation
Indices: 38330--38368 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
38320 TCTCGTCTCG
38330 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
38369 AATACGTGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.15, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:38504 original size:20 final size:20
Alignment explanation
Indices: 38479--38588 Score: 107
Period size: 20 Copynumber: 5.4 Consensus size: 20
38469 TTTTGCCGTT
*
38479 TTGCGATTCTTGGAATCGCG
1 TTGCGATTCTTGCAATCGCG
* *
38499 TTGCGATT-TTCTCAATCGCA
1 TTGCGATTCTT-GCAATCGCG
* *
38519 TTGCGATTCCTGGAATCGCG
1 TTGCGATTCTTGCAATCGCG
*
38539 TTGCGATT-TTCTCAATCGCG
1 TTGCGATTCTT-GCAATCGCG
*
38559 TTGCGATTCTTTGAAGATCGCG
1 TTGCGATTC-TTGCA-ATCGCG
38581 TTGCGATT
1 TTGCGATT
38589 TTCTTTTGAC
Statistics
Matches: 72, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
19 3 0.04
20 51 0.71
21 2 0.03
22 16 0.22
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.37
Consensus pattern (20 bp):
TTGCGATTCTTGCAATCGCG
Found at i:38526 original size:40 final size:40
Alignment explanation
Indices: 38479--38592 Score: 183
Period size: 40 Copynumber: 2.8 Consensus size: 40
38469 TTTTGCCGTT
38479 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
1 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
* *
38519 TTGCGATTCCTGGAATCGCGTTGCGATTTTCTCAATCGCG
1 TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
*
38559 TTGCGATTCTTTGAAGATCGCGTTGCGATTTTCT
1 TTGCGATTC-TTGGA-ATCGCGTTGCGATTTTCT
38593 TTTGACCGTT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
40 47 0.69
41 3 0.04
42 18 0.26
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.39
Consensus pattern (40 bp):
TTGCGATTCTTGGAATCGCGTTGCGATTTTCTCAATCGCA
Found at i:38604 original size:20 final size:20
Alignment explanation
Indices: 38579--38652 Score: 121
Period size: 20 Copynumber: 3.7 Consensus size: 20
38569 TTGAAGATCG
38579 CGTTGCGATTTTCTTTTGAC
1 CGTTGCGATTTTCTTTTGAC
38599 CGTTGCGATTTTCTTTTGAC
1 CGTTGCGATTTTCTTTTGAC
* *
38619 CGTTGCGATTTTCTTTTCAA
1 CGTTGCGATTTTCTTTTGAC
*
38639 CATTGCGATTTTCT
1 CGTTGCGATTTTCT
38653 AAATCGCGTT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.12, C:0.20, G:0.18, T:0.50
Consensus pattern (20 bp):
CGTTGCGATTTTCTTTTGAC
Found at i:38663 original size:40 final size:41
Alignment explanation
Indices: 38479--38689 Score: 163
Period size: 40 Copynumber: 5.2 Consensus size: 41
38469 TTTTGCCGTT
* * **
38479 TTGCGATTCT-TGGAATCGCGTTGCGATTTTCTCAATCGCA
1 TTGCGATTTTCTGAAATCGCGTTGCGATTTTCTCTTTCGCA
* * ** *
38519 TTGCGA-TTCCTGGAATCGCGTTGCGATTTTCTCAATCGCG
1 TTGCGATTTTCTGAAATCGCGTTGCGATTTTCTCTTTCGCA
*
38559 TTGCGATTCTT-TGAAGATCGCGTTGCGATTTTCT-TTT-GACCG
1 TTGCGATT-TTCTGAA-ATCGCGTTGCGATTTTCTCTTTCG--CA
*** *
38601 TTGCGATTTTCTTTTGA-C-CGTTGCGATTTTCT-TTTCAACA
1 TTGCGATTTTC-TGAAATCGCGTTGCGATTTTCTCTTTC-GCA
*
38641 TTGCGATTTTCT-AAATCGCGTTGCGATTTT-TGTTTCGCA
1 TTGCGATTTTCTGAAATCGCGTTGCGATTTTCTCTTTCGCA
38680 TTGCGATTTT
1 TTGCGATTTT
38690 GTTGGTCATT
Statistics
Matches: 143, Mismatches: 15, Indels: 27
0.77 0.08 0.15
Matches are distributed among these distances:
38 1 0.01
39 16 0.11
40 87 0.61
41 8 0.06
42 30 0.21
43 1 0.01
ACGTcount: A:0.15, C:0.20, G:0.21, T:0.43
Consensus pattern (41 bp):
TTGCGATTTTCTGAAATCGCGTTGCGATTTTCTCTTTCGCA
Found at i:44029 original size:4 final size:4
Alignment explanation
Indices: 44020--44053 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
44010 ATAATAATAA
* *
44020 ACAT ACAT ACAT ACAT GCAT GCAT ACAT ACAT AC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
44054 CTGATAGTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.44, C:0.26, G:0.06, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:48682 original size:31 final size:30
Alignment explanation
Indices: 48614--48684 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
48604 GGCATATGAA
* * * *
48614 ATTTGTTCCGAAGGACCTATGTAATTGTCC
1 ATTTGTTCCGAAGAACATAGGTAACTGTCC
*
48644 ATATGTTCCGAAGAACATAGGTAAACTGTCC
1 ATTTGTTCCGAAGAACATAGGT-AACTGTCC
48675 ATTTGTTCCG
1 ATTTGTTCCG
48685 TAGGTAACCC
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 18 0.53
31 16 0.47
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (30 bp):
ATTTGTTCCGAAGAACATAGGTAACTGTCC
Found at i:49199 original size:20 final size:20
Alignment explanation
Indices: 49174--49211 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
49164 TGATTATTTC
49174 GGAACTTGTTTAGGCTCAAT
1 GGAACTTGTTTAGGCTCAAT
49194 GGAACTTGTTTAGGCTCA
1 GGAACTTGTTTAGGCTCA
49212 GTATCTACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (20 bp):
GGAACTTGTTTAGGCTCAAT
Found at i:57942 original size:39 final size:40
Alignment explanation
Indices: 57887--57977 Score: 148
Period size: 39 Copynumber: 2.2 Consensus size: 40
57877 TAAACCCGAC
57887 CCCGACCCGACCTGACCCGAATATCACACTTAAAAAA-AA
1 CCCGACCCGACCTGACCCGAATATCACACTTAAAAAACAA
*
57926 CCCGACCCGACTTGACCCGAATATCACACTTAAAAAACTCAA
1 CCCGACCCGACCTGACCCGAATATCACACTTAAAAAA--CAA
57968 CCCGACCCGA
1 CCCGACCCGA
57978 ACAAAATAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
39 36 0.75
42 12 0.25
ACGTcount: A:0.37, C:0.38, G:0.11, T:0.13
Consensus pattern (40 bp):
CCCGACCCGACCTGACCCGAATATCACACTTAAAAAACAA
Found at i:58038 original size:36 final size:36
Alignment explanation
Indices: 57997--58081 Score: 161
Period size: 36 Copynumber: 2.4 Consensus size: 36
57987 AGTTTCATTT
57997 GACCCGACCCGAATATATGAATTAGAAATCCGACCC
1 GACCCGACCCGAATATATGAATTAGAAATCCGACCC
*
58033 TACCCGACCCGAATATATGAATTAGAAATCCGACCC
1 GACCCGACCCGAATATATGAATTAGAAATCCGACCC
58069 GACCCGACCCGAA
1 GACCCGACCCGAA
58082 ATAATAAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.35, C:0.33, G:0.16, T:0.15
Consensus pattern (36 bp):
GACCCGACCCGAATATATGAATTAGAAATCCGACCC
Found at i:58214 original size:256 final size:254
Alignment explanation
Indices: 57923--58442 Score: 698
Period size: 256 Copynumber: 2.0 Consensus size: 254
57913 CACTTAAAAA
* *
57923 AAACCCGACCCGACTTGACCCGAATATCACACTT-AAAAAACTC-A-ACCCGACCCG-A-A-CA-
1 AAACCCGACCCGACTCGACCCGAATATCACACTTAAAAAAACCCGACACCCGACCCGAATATCAC
*** * *
57981 AAATAAAGTTTCATTTGACCCGACCCGAATATATGAATTAGAA-ATCCGACCCTACCCGACCCGA
66 AAATAAA-AAACA--TGACCCGACCCGAACA-A--AA-TA-AAGATCC-ACCCGACCCGACCCGA
58045 ATATATGAATTAGAAATCCGACCCGACCCGACCCGAAATAATAAAAAATTATTTTTATTTAATAA
122 ATATATGAATTAGAAATCCGACCCGACCCGACCCGAAATAATAAAAAATTATTTTTATTTAAT-A
* *
58110 AAACAGTGACTTAATCCGACCCGACCCGAATTATATATATTTTCGGATCGGTCCGGTTTTTTTCA
186 AAACAGTGACTTAATCCAACCCGACCCGAATTATATATATTTTCGGATCGGTCCGATTTTTTTCA
58175 CCCT
251 CCCT
*
58179 AAACCCGACCCGA-TCCGACCCGAATATCACACTTAAAAAAACCCGACCGACTCGACCCGAATAT
1 AAACCCGACCCGACT-CGACCCGAATATCACACTTAAAAAAACCCGA-C-ACCCGACCCGAATAT
** * * * *
58243 CACACTTAAAAAACATGACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGATCCGAATATAT
63 CACAAATAAAAAACATGACCCGACCCGAACAAAATAAAGATCCACCCGACCCGACCCGAATATAT
58308 GAATTAGAAATCCGACCCGACCCGACCCGAAATAATAAAAAATTATTTTTATTTAATAAAACAGT
128 GAATTAGAAATCCGACCCGACCCGACCCGAAATAATAAAAAATTATTTTTATTTAATAAAACAGT
* *
58373 TACTTAATCCAACCCGACCCGAATTATATATATTTTCGGGTCGGTCCGATTTTTTTCACCCT
193 GACTTAATCCAACCCGACCCGAATTATATATATTTTCGGATCGGTCCGATTTTTTTCACCCT
58435 AAACCCGA
1 AAACCCGA
58443 AATCGACCCG
Statistics
Matches: 235, Mismatches: 18, Indels: 22
0.85 0.07 0.08
Matches are distributed among these distances:
255 1 0.00
256 105 0.45
257 86 0.37
258 5 0.02
259 2 0.01
261 10 0.04
262 16 0.07
263 1 0.00
264 4 0.02
265 5 0.02
ACGTcount: A:0.37, C:0.28, G:0.12, T:0.24
Consensus pattern (254 bp):
AAACCCGACCCGACTCGACCCGAATATCACACTTAAAAAAACCCGACACCCGACCCGAATATCAC
AAATAAAAAACATGACCCGACCCGAACAAAATAAAGATCCACCCGACCCGACCCGAATATATGAA
TTAGAAATCCGACCCGACCCGACCCGAAATAATAAAAAATTATTTTTATTTAATAAAACAGTGAC
TTAATCCAACCCGACCCGAATTATATATATTTTCGGATCGGTCCGATTTTTTTCACCCT
Found at i:58255 original size:38 final size:38
Alignment explanation
Indices: 58179--58255 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 38
58169 TTTTCACCCT
58179 AAACCCGACCCGATCCGACCCGAATATCACACTTAAAA
1 AAACCCGACCCGATCCGACCCGAATATCACACTTAAAA
58217 AAACCCGA-CCGA-CTCGACCCGAATATCACACTTAAAA
1 AAACCCGACCCGATC-CGACCCGAATATCACACTTAAAA
58254 AA
1 AA
58256 CATGACCCGA
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
36 1 0.03
37 29 0.76
38 8 0.21
ACGTcount: A:0.42, C:0.35, G:0.10, T:0.13
Consensus pattern (38 bp):
AAACCCGACCCGATCCGACCCGAATATCACACTTAAAA
Found at i:58266 original size:37 final size:39
Alignment explanation
Indices: 58179--58270 Score: 122
Period size: 37 Copynumber: 2.5 Consensus size: 39
58169 TTTTCACCCT
*
58179 AAACCCGACCCGA-TCCGACCCGAATATCACACTTAAAA
1 AAACACGACCCGACTCCGACCCGAATATCACACTTAAAA
*
58217 AAACCCGA-CCGACT-CGACCCGAATATCACACTT-AAA
1 AAACACGACCCGACTCCGACCCGAATATCACACTTAAAA
*
58253 AAACATGACCCGAC-CCGA
1 AAACACGACCCGACTCCGA
58271 ACAAAATAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
36 9 0.18
37 31 0.63
38 9 0.18
ACGTcount: A:0.39, C:0.37, G:0.12, T:0.12
Consensus pattern (39 bp):
AAACACGACCCGACTCCGACCCGAATATCACACTTAAAA
Found at i:60168 original size:19 final size:19
Alignment explanation
Indices: 60144--60182 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
60134 TAAGCGTATA
*
60144 TTTTATATATCTTATAGGC
1 TTTTATATATCCTATAGGC
60163 TTTTATATATCCTATAGGC
1 TTTTATATATCCTATAGGC
60182 T
1 T
60183 AGATCCAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.51
Consensus pattern (19 bp):
TTTTATATATCCTATAGGC
Found at i:61476 original size:7 final size:7
Alignment explanation
Indices: 61464--61488 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
61454 TCTGTGGTGA
61464 GAATTAT
1 GAATTAT
61471 GAATTAT
1 GAATTAT
61478 GAATTAT
1 GAATTAT
61485 GAAT
1 GAAT
61489 GGTGTCTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (7 bp):
GAATTAT
Found at i:64425 original size:18 final size:18
Alignment explanation
Indices: 64402--64436 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
64392 TTCCATCTGG
*
64402 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
64420 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
64437 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:65613 original size:19 final size:19
Alignment explanation
Indices: 65591--65654 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
65581 CTAGGCGGCT
*
65591 CGGCTTGGCTCAGCTCAAA
1 CGGCTCGGCTCAGCTCAAA
65610 CGGCTC-G----GCTCAAA
1 CGGCTCGGCTCAGCTCAAA
*
65624 CGGCTCGGCTCAGCTCAAG
1 CGGCTCGGCTCAGCTCAAA
65643 CGGCTCGGCTCA
1 CGGCTCGGCTCA
65655 AACGGCTCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 13 0.34
15 1 0.03
18 1 0.03
19 23 0.61
ACGTcount: A:0.17, C:0.36, G:0.30, T:0.17
Consensus pattern (19 bp):
CGGCTCGGCTCAGCTCAAA
Found at i:65620 original size:14 final size:14
Alignment explanation
Indices: 65597--65662 Score: 78
Period size: 14 Copynumber: 4.4 Consensus size: 14
65587 GGCTCGGCTT
*
65597 GGCTCAGCTCAAAC
1 GGCTCGGCTCAAAC
65611 GGCTCGGCTCAAAC
1 GGCTCGGCTCAAAC
65625 GGCTCGGCTCAGCTCAAGC
1 GGCTCGGCTCA----AA-C
65644 GGCTCGGCTCAAAC
1 GGCTCGGCTCAAAC
65658 GGCTC
1 GGCTC
65663 CTCAGGCTTC
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
14 30 0.65
15 2 0.04
18 2 0.04
19 12 0.26
ACGTcount: A:0.20, C:0.36, G:0.29, T:0.15
Consensus pattern (14 bp):
GGCTCGGCTCAAAC
Found at i:65634 original size:33 final size:33
Alignment explanation
Indices: 65591--65662 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
65581 CTAGGCGGCT
*
65591 CGGCTTGGCTCAGCTCAAACGGCTCGGCTCAAA
1 CGGCTCGGCTCAGCTCAAACGGCTCGGCTCAAA
*
65624 CGGCTCGGCTCAGCTCAAGCGGCTCGGCTCAAA
1 CGGCTCGGCTCAGCTCAAACGGCTCGGCTCAAA
65657 CGGCTC
1 CGGCTC
65663 CTCAGGCTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.18, C:0.36, G:0.29, T:0.17
Consensus pattern (33 bp):
CGGCTCGGCTCAGCTCAAACGGCTCGGCTCAAA
Found at i:67097 original size:22 final size:22
Alignment explanation
Indices: 67069--67112 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
67059 CATAAGATAC
*
67069 AACCAGAAGACACACGTAACAG
1 AACCAGAAAACACACGTAACAG
*
67091 AACCAGAAAACACACTTAACAG
1 AACCAGAAAACACACGTAACAG
67113 GAAATGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.52, C:0.27, G:0.14, T:0.07
Consensus pattern (22 bp):
AACCAGAAAACACACGTAACAG
Found at i:71612 original size:16 final size:17
Alignment explanation
Indices: 71593--71637 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 17
71583 TTATTTTTTA
71593 TTATCAATCTTTT-ATT
1 TTATCAATCTTTTAATT
71609 TTATCAATGGTCTTTTAATT
1 TTATCAA---TCTTTTAATT
71629 TTATCAATC
1 TTATCAATC
71638 AAATCACTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
16 7 0.28
17 2 0.08
19 6 0.24
20 10 0.40
ACGTcount: A:0.27, C:0.13, G:0.04, T:0.56
Consensus pattern (17 bp):
TTATCAATCTTTTAATT
Found at i:74483 original size:2 final size:2
Alignment explanation
Indices: 74476--74535 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
74466 TGAAGCCCTT
74476 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
74518 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
74536 CATACTTTTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:75235 original size:14 final size:14
Alignment explanation
Indices: 75196--75236 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
75186 CTGTAATCTA
*
75196 TTTGTTTATATTCG
1 TTTGTTTATGTTCG
* *
75210 TTTGTTTGTGTTTG
1 TTTGTTTATGTTCG
75224 TTTGTTTATGTTC
1 TTTGTTTATGTTC
75237 TCCGTACCTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.07, C:0.05, G:0.20, T:0.68
Consensus pattern (14 bp):
TTTGTTTATGTTCG
Found at i:76043 original size:2 final size:2
Alignment explanation
Indices: 76036--76061 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
76026 CCTTTTCAAA
76036 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
76062 TGCGTGATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:76631 original size:34 final size:35
Alignment explanation
Indices: 76568--76646 Score: 142
Period size: 34 Copynumber: 2.3 Consensus size: 35
76558 TCGTTGTTTC
76568 TTCCTTCCCTCTGCACGCTTTCTCTCTGATCATTCT
1 TTCCTTCCCTCTGCACGC-TTCTCTCTGATCATTCT
76604 TTCCTTCCCTCTGCACGC-TCTCTCTGATCATTCT
1 TTCCTTCCCTCTGCACGCTTCTCTCTGATCATTCT
76638 TTCCTTCCC
1 TTCCTTCCC
76647 AGCTTTCCCT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
34 25 0.58
36 18 0.42
ACGTcount: A:0.08, C:0.42, G:0.08, T:0.43
Consensus pattern (35 bp):
TTCCTTCCCTCTGCACGCTTCTCTCTGATCATTCT
Found at i:80789 original size:3 final size:3
Alignment explanation
Indices: 80783--80823 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
80773 TTTCATCATG
*
80783 TTA TTA TTTA TTA TTA TTA TTA TTA TTA TT- TTA TGA TTA TT
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
80824 TATATTTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:80829 original size:6 final size:6
Alignment explanation
Indices: 80820--80857 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
80810 ATTTTATGAT
80820 TATTTA TATTTA TATTTA TATTTA T-TTTA -ATTT- TATTT
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTT
80858 TCTGCACGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 11 0.37
6 19 0.63
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TATTTA
Found at i:81089 original size:27 final size:27
Alignment explanation
Indices: 81059--81115 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
81049 CATCTGTTAT
* *
81059 CGCTGTGCTGCACCAATCCCCATCCAC
1 CGCTGTGCTACACCAATCCCCAGCCAC
*
81086 CGCTGTGCTACACCAATCCCGAGCCAC
1 CGCTGTGCTACACCAATCCCCAGCCAC
81113 CGC
1 CGC
81116 CATTTCCACG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.47, G:0.18, T:0.16
Consensus pattern (27 bp):
CGCTGTGCTACACCAATCCCCAGCCAC
Found at i:94497 original size:3 final size:3
Alignment explanation
Indices: 94491--94743 Score: 58
Period size: 3 Copynumber: 81.3 Consensus size: 3
94481 TTTTTTCATG
* *
94491 TTA TTA TTA CTTA TTA TTA TTTA CTT- TTA TTT TTA TTA TTA CT- TTA
1 TTA TTA TTA -TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA
** ** * * *
94537 TATA TTA TTA TTTA TTA AGA TTA GCA TTA TTC TAA TATA TTA CTA TTA
1 T-TA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
* * *
94585 TTA CTA TTTA GTTA TTC TTA -TA TACA TTA TT- TGTA -TA TGTA TTA
1 TTA TTA -TTA -TTA TTA TTA TTA T-TA TTA TTA T-TA TTA T-TA TTA
* * * * **
94629 TTTA CTAA GTA TTA TTA TTA TTA GTA TTA -CA CAA TTTA TT- TT- TTA
1 -TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* * * *
94674 TTA TCA CTA TATA TTA TTA TTA GTT- TTA -TA TTG TTA CTA TTTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA -TTA TTA TTA TTA TTA TTA -TTA TTA
*
94720 TTTA TTG TTA TTAA TTA TTA TTA T
1 -TTA TTA TTA TT-A TTA TTA TTA T
94744 ATCTAATAAA
Statistics
Matches: 178, Mismatches: 47, Indels: 50
0.65 0.17 0.18
Matches are distributed among these distances:
2 17 0.10
3 116 0.65
4 45 0.25
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:94527 original size:22 final size:25
Alignment explanation
Indices: 94492--94553 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 25
94482 TTTTTCATGT
*
94492 TATTATTACTTATTATTA-TTTACT-
1 TATTATTATTTATTATTACTTTA-TA
94516 T-TTATT-TTTATTATTACTTTATA
1 TATTATTATTTATTATTACTTTATA
94539 TATTATTATTTATTA
1 TATTATTATTTATTA
94554 AGATTAGCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
22 10 0.30
23 10 0.30
24 6 0.18
25 7 0.21
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (25 bp):
TATTATTATTTATTATTACTTTATA
Found at i:94528 original size:19 final size:19
Alignment explanation
Indices: 94502--94550 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
94492 TATTATTACT
94502 TATTATTATTTACTTT-TA
1 TATTATTATTTACTTTATA
*
94520 TTTTTATTA-TTACTTTATA
1 -TATTATTATTTACTTTATA
94539 TATTATTATTTA
1 TATTATTATTTA
94551 TTAAGATTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTATTATTTACTTTATA
Found at i:94725 original size:20 final size:20
Alignment explanation
Indices: 94702--94741 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
94692 ATTAGTTTTA
*
94702 TATTGTTACTATTTATTATT
1 TATTGTTACTAATTATTATT
*
94722 TATTGTTATTAATTATTATT
1 TATTGTTACTAATTATTATT
94742 ATATCTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.65
Consensus pattern (20 bp):
TATTGTTACTAATTATTATT
Found at i:95806 original size:148 final size:148
Alignment explanation
Indices: 95529--95817 Score: 499
Period size: 148 Copynumber: 2.0 Consensus size: 148
95519 AAACTATTTA
* *
95529 AATTAGAATCAAATAATATTATAGTATTATAAATATTTATAATTAAATTTAAACAAAAACTCAAA
1 AATTAGAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACAAAAACTCAAA
* *
95594 AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAATTTCGAGACAACT
66 AATTCAATTCAATTCAACTTGACTTAAATTTTATAAACTCAAATCGAAAAAATTTCGAGACAACT
95659 ATTTTATAAACTGAACTG
131 ATTTTATAAACTGAACTG
* *
95677 AATTAGAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACATAAACTCGAA
1 AATTAGAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACAAAAACTCAAA
*
95742 AATTCAATTCAATTCAACTTGACTTAAATTTTATAAACTCAAATCGAAAAAAATTT-GAGTCAAC
66 AATTCAATTCAATTCAACTTGACTTAAATTTTATAAACTCAAATCG-AAAAAATTTCGAGACAAC
95806 TATTTTATAAAC
130 TATTTTATAAAC
95818 CGAATTGAGT
Statistics
Matches: 133, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
148 124 0.93
149 9 0.07
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.35
Consensus pattern (148 bp):
AATTAGAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACAAAAACTCAAA
AATTCAATTCAATTCAACTTGACTTAAATTTTATAAACTCAAATCGAAAAAATTTCGAGACAACT
ATTTTATAAACTGAACTG
Found at i:96069 original size:35 final size:36
Alignment explanation
Indices: 95975--96071 Score: 115
Period size: 35 Copynumber: 2.7 Consensus size: 36
95965 AATGGATTAT
* * * *
95975 GAATTTGGGGTTGAGCATGTAATTGAAGTATTTTTT
1 GAATTTGGGGTTTAGAATGTAATTGAAGCATTTTTA
* * *
96011 GAATTTGAGGTTTAAAATATAATTGAAGCA-TTTTA
1 GAATTTGGGGTTTAGAATGTAATTGAAGCATTTTTA
*
96046 GATTTTGGGGTTTAGAATGTAATTGA
1 GAATTTGGGGTTTAGAATGTAATTGA
96072 TGATTGTGTT
Statistics
Matches: 50, Mismatches: 11, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
35 26 0.52
36 24 0.48
ACGTcount: A:0.31, C:0.02, G:0.25, T:0.42
Consensus pattern (36 bp):
GAATTTGGGGTTTAGAATGTAATTGAAGCATTTTTA
Found at i:96656 original size:284 final size:284
Alignment explanation
Indices: 96298--96866 Score: 1129
Period size: 284 Copynumber: 2.0 Consensus size: 284
96288 ACTTTACCCT
96298 AAATATATTGGTATGCGAAAAGGAGTTTTATTGATTTGACATTTTGTGTTACAACCCATATTACA
1 AAATATATTGGTATGCGAAAAGGAGTTTTATTGATTTGACATTTTGTGTTACAACCCATATTACA
96363 ATACAAGTCCAAGAATGGAGCGGCCTGCATGATGCAAACTATATGGAAATTAGGGTTTTGATAAC
66 ATACAAGTCCAAGAATGGAGCGGCCTGCATGATGCAAACTATATGGAAATTAGGGTTTTGATAAC
96428 CCTAATCGCCAACAACCTATAGTCGTTAGATCAAACTGATTATCCAAGGTCTAGATGAAACCCTA
131 CCTAATCGCCAACAACCTATAGTCGTTAGATCAAACTGATTATCCAAGGTCTAGATGAAACCCTA
96493 GTTGCAAGGGTAATTGGGATCAGTGGCCGCCAGCCATGGAAGGCAACCCATCGACTCCTCCAAGC
196 GTTGCAAGGGTAATTGGGATCAGTGGCCGCCAGCCATGGAAGGCAACCCATCGACTCCTCCAAGC
96558 TCTCGTCGGATCCTTCACGCGTCG
261 TCTCGTCGGATCCTTCACGCGTCG
96582 AAATATATTGGTATGCGAAAAGGAGTTTTATTGATTTGACATTTTGTGTTACAACCCATATTACA
1 AAATATATTGGTATGCGAAAAGGAGTTTTATTGATTTGACATTTTGTGTTACAACCCATATTACA
96647 ATACAAGTCCAAGAATGGAGCGGCCTGCATGATGCAAACTATATGGAAATTAGGGTTTTGATAAC
66 ATACAAGTCCAAGAATGGAGCGGCCTGCATGATGCAAACTATATGGAAATTAGGGTTTTGATAAC
*
96712 CCTAATCGCCAACAACCTATAGTCGTTAGATCAAACTGATTATCCAAGGTCTAGATGAAACCTTA
131 CCTAATCGCCAACAACCTATAGTCGTTAGATCAAACTGATTATCCAAGGTCTAGATGAAACCCTA
96777 GTTGCAAGGGTAATTGGGATCAGTGGCCGCCAGCCATGGAAGGCAACCCATCGACTCCTCCAAGC
196 GTTGCAAGGGTAATTGGGATCAGTGGCCGCCAGCCATGGAAGGCAACCCATCGACTCCTCCAAGC
96842 TCTCGTCGGATCCTTCACGCGTCG
261 TCTCGTCGGATCCTTCACGCGTCG
96866 A
1 A
96867 TGTTAGCAAG
Statistics
Matches: 284, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
284 284 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (284 bp):
AAATATATTGGTATGCGAAAAGGAGTTTTATTGATTTGACATTTTGTGTTACAACCCATATTACA
ATACAAGTCCAAGAATGGAGCGGCCTGCATGATGCAAACTATATGGAAATTAGGGTTTTGATAAC
CCTAATCGCCAACAACCTATAGTCGTTAGATCAAACTGATTATCCAAGGTCTAGATGAAACCCTA
GTTGCAAGGGTAATTGGGATCAGTGGCCGCCAGCCATGGAAGGCAACCCATCGACTCCTCCAAGC
TCTCGTCGGATCCTTCACGCGTCG
Found at i:98161 original size:26 final size:25
Alignment explanation
Indices: 98132--98184 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 25
98122 ATCTTCTTTT
*
98132 TTCAATGTTATTATTACTTATTATTA
1 TTCAATGTTATTATTA-GTATTATTA
*
98158 TTCAATTTTATTATTAGTATTATTA
1 TTCAATGTTATTATTAGTATTATTA
98183 TT
1 TT
98185 TATTTAGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (25 bp):
TTCAATGTTATTATTAGTATTATTA
Found at i:98321 original size:19 final size:19
Alignment explanation
Indices: 98294--98341 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
98284 ATTATTATGC
* *
98294 ATTAGTATTAT-ACAATTT
1 ATTATTATTATCACAATAT
*
98312 ATTATATATTATCACTATAT
1 ATTAT-TATTATCACAATAT
98332 ATTATTATTA
1 ATTATTATTA
98342 GTTTTATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 4 0.16
19 11 0.44
20 10 0.40
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (19 bp):
ATTATTATTATCACAATAT
Found at i:101737 original size:23 final size:23
Alignment explanation
Indices: 101693--101743 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
101683 GTTCGAACTC
* *
101693 GAGTTCGAGCTTAAACCTAGCTT
1 GAGTTTGAGCTTAAACCGAGCTT
* *
101716 GAGTTTGAGCTTCAATCGAGCTT
1 GAGTTTGAGCTTAAACCGAGCTT
101739 -AGTTT
1 GAGTTT
101744 TTTGAGATCG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (23 bp):
GAGTTTGAGCTTAAACCGAGCTT
Found at i:102716 original size:22 final size:22
Alignment explanation
Indices: 102674--102717 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
102664 AAAAAGTGAA
**
102674 TTTTAAAATTTATATTTTATAT
1 TTTTAAAATTTATATAATATAT
102696 TTTTAAAATTT-TATGAATATAT
1 TTTTAAAATTTATAT-AATATAT
102718 AAATTTATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TTTTAAAATTTATATAATATAT
Found at i:103091 original size:18 final size:16
Alignment explanation
Indices: 103058--103093 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 16
103048 AACTCGTCAC
103058 TAATAAAAAATTATAA
1 TAATAAAAAATTATAA
103074 TAATGAAAAAATTAATAA
1 TAAT-AAAAAATT-ATAA
103092 TA
1 TA
103094 TTTTATTGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 8 0.44
18 6 0.33
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (16 bp):
TAATAAAAAATTATAA
Found at i:105116 original size:24 final size:24
Alignment explanation
Indices: 105089--105138 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
105079 TGTCTCACGA
105089 CGTTGAACTCTAATATTTGATTGT
1 CGTTGAACTCTAATATTTGATTGT
105113 CGTTGAACTCTAATATTTGATTGT
1 CGTTGAACTCTAATATTTGATTGT
105137 CG
1 CG
105139 GTGATCTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (24 bp):
CGTTGAACTCTAATATTTGATTGT
Found at i:105948 original size:20 final size:20
Alignment explanation
Indices: 105905--105960 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
105895 CCTATCTCTA
*
105905 TGACATATTTTCTTATGTTTTT
1 TGACATATTTT-TT-TGTTATT
*
105927 TGACATGTTTTTTTGTTATT
1 TGACATATTTTTTTGTTATT
* *
105947 TGACTTCTTTTTTT
1 TGACATATTTTTTT
105961 CATTTATTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 18 0.60
21 2 0.07
22 10 0.33
ACGTcount: A:0.14, C:0.09, G:0.11, T:0.66
Consensus pattern (20 bp):
TGACATATTTTTTTGTTATT
Found at i:115435 original size:20 final size:20
Alignment explanation
Indices: 115410--115456 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
115400 TGTCTGAATA
115410 TGGAAATTTTAGAATTTAAG
1 TGGAAATTTTAGAATTTAAG
115430 TGGAAATTTTAGAATTTAAG
1 TGGAAATTTTAGAATTTAAG
115450 TGGAAAT
1 TGGAAAT
115457 GGATTAGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.38
Consensus pattern (20 bp):
TGGAAATTTTAGAATTTAAG
Found at i:127061 original size:35 final size:34
Alignment explanation
Indices: 126952--127084 Score: 139
Period size: 35 Copynumber: 4.0 Consensus size: 34
126942 GTAAAAGGTC
* * ** *
126952 TGATATCTGTAAATATATGATAATTGTAATCATA
1 TGATATCTATAAATATCTGATAATTAAAATCATT
* **
126986 TGATA--TATAAATAT-TGGTAACCAAAATCA-T
1 TGATATCTATAAATATCTGATAATTAAAATCATT
*
127016 TAATATCTATAAATATCTGATAATTAAAAATCATT
1 TGATATCTATAAATATCTGATAATT-AAAATCATT
127051 TGATATCTATAAATATCTGATAATTGAAAATCAT
1 TGATATCTATAAATATCTGATAATT-AAAATCAT
127085 CTAATAACTG
Statistics
Matches: 81, Mismatches: 13, Indels: 9
0.79 0.13 0.09
Matches are distributed among these distances:
30 4 0.05
31 10 0.12
32 17 0.21
33 5 0.06
34 12 0.15
35 33 0.41
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.38
Consensus pattern (34 bp):
TGATATCTATAAATATCTGATAATTAAAATCATT
Found at i:127064 original size:18 final size:18
Alignment explanation
Indices: 127009--127064 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 18
126999 TTGGTAACCA
*
127009 AAATCA-TTAATATCTAT
1 AAATCATTTGATATCTAT
* *
127026 AAAT-ATCTGATAAT-TAA
1 AAATCATTTGAT-ATCTAT
127043 AAATCATTTGATATCTAT
1 AAATCATTTGATATCTAT
127061 AAAT
1 AAAT
127065 ATCTGATAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
16 1 0.03
17 15 0.50
18 14 0.47
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (18 bp):
AAATCATTTGATATCTAT
Done.